data_V9W # _chem_comp.id V9W _chem_comp.name "(3~{R})-3-[[5-[(4,4-dimethylpiperidin-1-yl)methyl]-1~{H}-benzimidazol-2-yl]methyl]-1-[6-[(phenylmethyl)amino]pyrimidin-4-yl]piperidin-3-ol" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C32 H41 N7 O" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-05-03 _chem_comp.pdbx_modified_date 2021-10-15 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 539.714 _chem_comp.one_letter_code ? _chem_comp.three_letter_code V9W _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 7OEI _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal V9W C10 C1 C 0 1 Y N N 45.636 -30.794 23.053 4.930 -1.688 1.866 C10 V9W 1 V9W C13 C2 C 0 1 Y N N 44.769 -31.516 24.023 3.763 -1.553 1.127 C13 V9W 2 V9W C15 C3 C 0 1 Y N N 43.908 -32.872 25.653 1.821 -1.682 0.084 C15 V9W 3 V9W C17 C4 C 0 1 N N R 43.681 -35.383 26.345 -0.603 -1.184 -0.069 C17 V9W 4 V9W C20 C5 C 0 1 N N N 43.516 -37.727 24.467 -3.053 -0.535 1.333 C20 V9W 5 V9W C21 C6 C 0 1 N N N 42.372 -35.871 25.666 -1.968 -1.761 -0.454 C21 V9W 6 V9W C01 C7 C 0 1 N N N 41.928 -23.929 24.552 11.071 0.828 -2.423 C01 V9W 7 V9W C02 C8 C 0 1 N N N 42.561 -24.828 23.458 10.228 1.068 -1.170 C02 V9W 8 V9W C03 C9 C 0 1 N N N 43.737 -24.142 22.746 11.148 1.236 0.041 C03 V9W 9 V9W C04 C10 C 0 1 N N N 43.098 -26.057 24.130 9.388 2.335 -1.353 C04 V9W 10 V9W C05 C11 C 0 1 N N N 43.559 -27.078 23.096 8.502 2.536 -0.122 C05 V9W 11 V9W C07 C12 C 0 1 N N N 42.886 -28.512 21.280 6.667 1.585 1.140 C07 V9W 12 V9W C08 C13 C 0 1 Y N N 43.585 -29.585 22.205 5.638 0.484 1.130 C08 V9W 13 V9W C09 C14 C 0 1 Y N N 45.036 -29.836 22.156 5.861 -0.671 1.864 C09 V9W 14 V9W C11 C15 C 0 1 Y N N 42.781 -30.290 23.151 4.495 0.635 0.396 C11 V9W 15 V9W C12 C16 C 0 1 Y N N 43.396 -31.267 24.060 3.538 -0.383 0.383 C12 V9W 16 V9W C16 C17 C 0 1 N N N 43.773 -33.919 26.800 0.493 -2.198 -0.406 C16 V9W 17 V9W C18 C18 C 0 1 N N N 44.816 -35.699 25.394 -0.583 -0.891 1.433 C18 V9W 18 V9W C19 C19 C 0 1 N N N 44.880 -37.154 24.923 -1.720 0.078 1.771 C19 V9W 19 V9W C23 C20 C 0 1 Y N N 41.319 -38.360 25.848 -4.258 -1.231 -0.564 C23 V9W 20 V9W C25 C21 C 0 1 Y N N 39.962 -39.318 27.577 -5.544 -2.814 -1.636 C25 V9W 21 V9W C27 C22 C 0 1 Y N N 39.823 -40.303 25.342 -6.615 -0.942 -0.824 C27 V9W 22 V9W C29 C23 C 0 1 N N N 39.890 -41.948 23.076 -7.734 1.071 0.067 C29 V9W 23 V9W C30 C24 C 0 1 Y N N 41.481 -42.621 23.127 -9.122 1.654 0.137 C30 V9W 24 V9W C31 C25 C 0 1 Y N N 41.996 -43.197 24.345 -9.942 1.359 1.210 C31 V9W 25 V9W C32 C26 C 0 1 Y N N 43.331 -43.767 24.412 -11.215 1.893 1.275 C32 V9W 26 V9W C33 C27 C 0 1 Y N N 44.170 -43.768 23.246 -11.668 2.724 0.267 C33 V9W 27 V9W C34 C28 C 0 1 Y N N 43.662 -43.195 22.022 -10.848 3.020 -0.806 C34 V9W 28 V9W C35 C29 C 0 1 Y N N 42.331 -42.627 21.960 -9.573 2.489 -0.868 C35 V9W 29 V9W C36 C30 C 0 1 Y N N 40.804 -39.311 24.921 -5.398 -0.462 -0.350 C36 V9W 30 V9W C39 C31 C 0 1 N N N 41.960 -26.260 21.400 8.413 0.146 0.276 C39 V9W 31 V9W C40 C32 C 0 1 N N N 41.492 -25.193 22.414 9.297 -0.126 -0.943 C40 V9W 32 V9W N06 N1 N 0 1 N N N 42.409 -27.430 22.190 7.628 1.368 0.050 N06 V9W 33 V9W N14 N2 N 0 1 Y N N 45.063 -32.516 25.022 2.659 -2.356 0.917 N14 V9W 34 V9W N22 N3 N 0 1 N N N 42.342 -37.351 25.361 -3.022 -0.797 -0.111 N22 V9W 35 V9W N24 N4 N 0 1 Y N N 40.902 -38.369 27.168 -4.373 -2.392 -1.207 N24 V9W 36 V9W N26 N5 N 0 1 Y N N 39.435 -40.268 26.679 -6.646 -2.116 -1.452 N26 V9W 37 V9W N28 N6 N 0 1 N N N 39.263 -41.328 24.374 -7.779 -0.214 -0.636 N28 V9W 38 V9W N38 N7 N 0 1 Y N N 42.855 -32.118 25.080 2.334 -0.528 -0.229 N38 V9W 39 V9W O37 O1 O 0 1 N N N 43.860 -36.222 27.492 -0.374 0.025 -0.796 O37 V9W 40 V9W H1 H1 H 0 1 N N N 46.699 -30.984 23.021 5.106 -2.584 2.443 H1 V9W 41 V9W H2 H2 H 0 1 N N N 43.309 -37.355 23.453 -3.215 -1.471 1.869 H2 V9W 42 V9W H3 H3 H 0 1 N N N 43.594 -38.824 24.446 -3.863 0.158 1.559 H3 V9W 43 V9W H4 H4 H 0 1 N N N 41.530 -35.640 26.336 -1.990 -1.958 -1.525 H4 V9W 44 V9W H5 H5 H 0 1 N N N 42.249 -35.322 24.721 -2.135 -2.691 0.090 H5 V9W 45 V9W H6 H6 H 0 1 N N N 41.094 -24.464 25.030 11.668 -0.075 -2.293 H6 V9W 46 V9W H7 H7 H 0 1 N N N 42.687 -23.683 25.309 10.415 0.709 -3.286 H7 V9W 47 V9W H8 H8 H 0 1 N N N 41.554 -23.002 24.093 11.733 1.679 -2.585 H8 V9W 48 V9W H9 H9 H 0 1 N N N 44.149 -24.818 21.983 11.809 2.087 -0.120 H9 V9W 49 V9W H10 H10 H 0 1 N N N 43.385 -23.217 22.265 10.546 1.406 0.934 H10 V9W 50 V9W H11 H11 H 0 1 N N N 44.519 -23.899 23.481 11.744 0.333 0.172 H11 V9W 51 V9W H12 H12 H 0 1 N N N 43.950 -25.777 24.766 10.047 3.195 -1.472 H12 V9W 52 V9W H13 H13 H 0 1 N N N 42.308 -26.504 24.751 8.761 2.231 -2.239 H13 V9W 53 V9W H14 H14 H 0 1 N N N 44.378 -26.651 22.499 9.129 2.654 0.762 H14 V9W 54 V9W H15 H15 H 0 1 N N N 43.913 -27.985 23.609 7.891 3.429 -0.255 H15 V9W 55 V9W H16 H16 H 0 1 N N N 43.605 -28.109 20.552 6.173 2.547 1.002 H16 V9W 56 V9W H17 H17 H 0 1 N N N 42.037 -28.963 20.746 7.194 1.581 2.095 H17 V9W 57 V9W H18 H18 H 0 1 N N N 45.652 -29.302 21.447 6.769 -0.774 2.439 H18 V9W 58 V9W H19 H19 H 0 1 N N N 41.718 -30.105 23.199 4.332 1.538 -0.173 H19 V9W 59 V9W H20 H20 H 0 1 N N N 44.652 -33.821 27.455 0.535 -2.342 -1.486 H20 V9W 60 V9W H21 H21 H 0 1 N N N 42.863 -33.683 27.370 0.270 -3.148 0.079 H21 V9W 61 V9W H22 H22 H 0 1 N N N 44.706 -35.058 24.507 -0.719 -1.819 1.988 H22 V9W 62 V9W H23 H23 H 0 1 N N N 45.763 -35.463 25.902 0.371 -0.440 1.704 H23 V9W 63 V9W H24 H24 H 0 1 N N N 45.254 -37.771 25.753 -1.564 1.020 1.247 H24 V9W 64 V9W H25 H25 H 0 1 N N N 45.581 -37.214 24.077 -1.738 0.257 2.846 H25 V9W 65 V9W H26 H26 H 0 1 N N N 39.631 -39.324 28.605 -5.603 -3.760 -2.153 H26 V9W 66 V9W H27 H27 H 0 1 N N N 39.214 -42.752 22.749 -7.079 1.756 -0.471 H27 V9W 67 V9W H28 H28 H 0 1 N N N 39.906 -41.151 22.318 -7.352 0.920 1.077 H28 V9W 68 V9W H29 H29 H 0 1 N N N 41.375 -43.205 25.228 -9.588 0.710 1.998 H29 V9W 69 V9W H30 H30 H 0 1 N N N 43.692 -44.190 25.338 -11.856 1.662 2.113 H30 V9W 70 V9W H31 H31 H 0 1 N N N 45.163 -44.190 23.284 -12.663 3.141 0.317 H31 V9W 71 V9W H32 H32 H 0 1 N N N 44.284 -43.190 21.139 -11.202 3.668 -1.593 H32 V9W 72 V9W H33 H33 H 0 1 N N N 41.972 -42.205 21.033 -8.931 2.723 -1.704 H33 V9W 73 V9W H34 H34 H 0 1 N N N 41.144 -39.297 23.896 -5.339 0.482 0.171 H34 V9W 74 V9W H35 H35 H 0 1 N N N 41.128 -26.545 20.739 7.739 -0.696 0.432 H35 V9W 75 V9W H36 H36 H 0 1 N N N 42.792 -25.869 20.795 9.041 0.276 1.158 H36 V9W 76 V9W H37 H37 H 0 1 N N N 40.607 -25.579 22.942 8.669 -0.270 -1.823 H37 V9W 77 V9W H38 H38 H 0 1 N N N 41.221 -24.282 21.860 9.891 -1.023 -0.769 H38 V9W 78 V9W H40 H40 H 0 1 N N N 45.970 -32.888 25.220 2.509 -3.237 1.294 H40 V9W 79 V9W H41 H41 H 0 1 N N N 39.063 -42.121 24.949 -8.624 -0.555 -0.969 H41 V9W 80 V9W H43 H43 H 0 1 N N N 44.652 -35.968 27.950 0.474 0.446 -0.601 H43 V9W 81 # # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal V9W C10 C13 DOUB Y N 1 V9W C10 C09 SING Y N 2 V9W C13 C12 SING Y N 3 V9W C13 N14 SING Y N 4 V9W C15 C16 SING N N 5 V9W C15 N14 SING Y N 6 V9W C15 N38 DOUB Y N 7 V9W C17 C21 SING N N 8 V9W C17 C16 SING N N 9 V9W C17 C18 SING N N 10 V9W C17 O37 SING N N 11 V9W C20 C19 SING N N 12 V9W C20 N22 SING N N 13 V9W C21 N22 SING N N 14 V9W C01 C02 SING N N 15 V9W C02 C03 SING N N 16 V9W C02 C04 SING N N 17 V9W C02 C40 SING N N 18 V9W C04 C05 SING N N 19 V9W C05 N06 SING N N 20 V9W C07 C08 SING N N 21 V9W C07 N06 SING N N 22 V9W C08 C09 DOUB Y N 23 V9W C08 C11 SING Y N 24 V9W C11 C12 DOUB Y N 25 V9W C12 N38 SING Y N 26 V9W C18 C19 SING N N 27 V9W C23 C36 DOUB Y N 28 V9W C23 N22 SING N N 29 V9W C23 N24 SING Y N 30 V9W C25 N24 DOUB Y N 31 V9W C25 N26 SING Y N 32 V9W C27 C36 SING Y N 33 V9W C27 N26 DOUB Y N 34 V9W C27 N28 SING N N 35 V9W C29 N28 SING N N 36 V9W C30 C31 DOUB Y N 37 V9W C30 C35 SING Y N 38 V9W C31 C32 SING Y N 39 V9W C32 C33 DOUB Y N 40 V9W C33 C34 SING Y N 41 V9W C34 C35 DOUB Y N 42 V9W C39 C40 SING N N 43 V9W C39 N06 SING N N 44 V9W C29 C30 SING N N 45 V9W C10 H1 SING N N 46 V9W C20 H2 SING N N 47 V9W C20 H3 SING N N 48 V9W C21 H4 SING N N 49 V9W C21 H5 SING N N 50 V9W C01 H6 SING N N 51 V9W C01 H7 SING N N 52 V9W C01 H8 SING N N 53 V9W C03 H9 SING N N 54 V9W C03 H10 SING N N 55 V9W C03 H11 SING N N 56 V9W C04 H12 SING N N 57 V9W C04 H13 SING N N 58 V9W C05 H14 SING N N 59 V9W C05 H15 SING N N 60 V9W C07 H16 SING N N 61 V9W C07 H17 SING N N 62 V9W C09 H18 SING N N 63 V9W C11 H19 SING N N 64 V9W C16 H20 SING N N 65 V9W C16 H21 SING N N 66 V9W C18 H22 SING N N 67 V9W C18 H23 SING N N 68 V9W C19 H24 SING N N 69 V9W C19 H25 SING N N 70 V9W C25 H26 SING N N 71 V9W C29 H27 SING N N 72 V9W C29 H28 SING N N 73 V9W C31 H29 SING N N 74 V9W C32 H30 SING N N 75 V9W C33 H31 SING N N 76 V9W C34 H32 SING N N 77 V9W C35 H33 SING N N 78 V9W C36 H34 SING N N 79 V9W C39 H35 SING N N 80 V9W C39 H36 SING N N 81 V9W C40 H37 SING N N 82 V9W C40 H38 SING N N 83 V9W N14 H40 SING N N 84 V9W N28 H41 SING N N 85 V9W O37 H43 SING N N 86 # # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor V9W InChI InChI 1.03 "InChI=1S/C32H41N7O/c1-31(2)12-15-38(16-13-31)21-25-9-10-26-27(17-25)37-29(36-26)19-32(40)11-6-14-39(22-32)30-18-28(34-23-35-30)33-20-24-7-4-3-5-8-24/h3-5,7-10,17-18,23,40H,6,11-16,19-22H2,1-2H3,(H,36,37)(H,33,34,35)/t32-/m1/s1" V9W InChIKey InChI 1.03 YTMRIXJBQMOKPZ-JGCGQSQUSA-N V9W SMILES_CANONICAL CACTVS 3.385 "CC1(C)CCN(CC1)Cc2ccc3[nH]c(C[C@]4(O)CCCN(C4)c5cc(NCc6ccccc6)ncn5)nc3c2" V9W SMILES CACTVS 3.385 "CC1(C)CCN(CC1)Cc2ccc3[nH]c(C[C]4(O)CCCN(C4)c5cc(NCc6ccccc6)ncn5)nc3c2" V9W SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC1(CCN(CC1)Cc2ccc3c(c2)nc([nH]3)C[C@@]4(CCCN(C4)c5cc(ncn5)NCc6ccccc6)O)C" V9W SMILES "OpenEye OEToolkits" 2.0.7 "CC1(CCN(CC1)Cc2ccc3c(c2)nc([nH]3)CC4(CCCN(C4)c5cc(ncn5)NCc6ccccc6)O)C" # _pdbx_chem_comp_identifier.comp_id V9W _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "(3~{R})-3-[[5-[(4,4-dimethylpiperidin-1-yl)methyl]-1~{H}-benzimidazol-2-yl]methyl]-1-[6-[(phenylmethyl)amino]pyrimidin-4-yl]piperidin-3-ol" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site V9W "Create component" 2021-05-03 PDBE V9W "Initial release" 2021-10-20 RCSB ##